What is flux balance analysis? | Nature Biotechnology Skip to main content Thank you for
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Cytoscape is open-source software for integration, visualization and analysis of biological
networks. It can be extended through Cytoscape plugins, enabling a broad community of …

The PANTHER (protein annotation through evolutionary relationship) classification system
(http://www. pantherdb. org/) is a comprehensive system that combines gene function …

An essential prerequisite for any systems-level understanding of cellular functions is to
correctly uncover and annotate all functional interactions among proteins in the cell. Toward …

The data and tools in PANTHER—a comprehensive, curated database of protein families,
trees, subfamilies and functions available at http://pantherdb. org—have undergone …

The use of multiple omics techniques (ie, genomics, transcriptomics, proteomics, and
metabolomics) is becoming increasingly popular in all facets of life science. Omics …

Genome-scale metabolic models are mathematically-structured knowledge bases that can
be used to predict metabolic pathway usage and growth phenotypes. Furthermore, they can …

Motivation: Simulation and modeling is becoming a standard approach to understand
complex biochemical processes. Therefore, there is a big need for software tools that allow …

To construct sophisticated biochemical circuits from scratch, one needs to understand how
simple the building blocks can be and how robustly such circuits can scale up. Using a …

Over the past decade, a growing community of researchers has emerged around the use of
constraint-based reconstruction and analysis (COBRA) methods to simulate, analyze and …